RetrogeneDB ID:

retro_etel_694

Retrocopy
location
Organism:Lesser hedgehog tenrec (Echinops telfairi)
Coordinates:scaffold_146302:2..490(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RAB11A
Ensembl ID:ENSETEG00000004920
Aliases:None
Description:RAB11A, member RAS oncogene family [Source:HGNC Symbol;Acc:9760]


Retrocopy-Parental alignment summary:






>retro_etel_694
ATGGGCACCCGCGACGACGAGTACGACTACCTCTTCAAAGTTGTCCTTATTGGAGATTCTGGTGTTGGAAAGAGTAATCT
CCTGTCTCGGTTCACTCGAAATGAGTTTAACCTGGAGAGCAAGAGCACCATTGGGAGTAGAGTTTGCCACAAGAAGCATC
CAGGTTGATGGAAAAACAATAAAGGCACAGATATGGGACACAGTGGGGCAAGAGCGATACCGAGCGATAATGTCAGCATA
TTATCGTGGAGCTGTAGGTGCCTTATTGGTTTATGACATTGCTAAACATCTCACATATGAAAATGTAGAACGGTGGCTGA
AAGAATTGAGGGGATCACGCTGATAGTAACATTGTGATCATGCCTGGTGGGCAATAAGAGTGATTTACGCCATCTCAGGG
CAGTCCCTACCGATGAAGCAAGAGCTTTTTGCAGAAAAAAGAATGGGTTGGTCATTCATCGAGACTTTCGGCTCTAGACT
CAACAAAT

ORF - retro_etel_694 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 93.98 %
Parental protein coverage: 73.73 %
Number of stop codons detected: 0
Number of frameshifts detected 5


Retrocopy - Parental Gene Alignment:

ParentalMGTRDDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIG-VEFATRSIQVDGKTIKAQIWDTAG
MGTRDDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIG.VEFATRSIQVDGKTIKAQIWDT.G
RetrocopyMGTRDDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIG>VEFATRSIQVDGKTIKAQIWDTVG
ParentalQERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELR-DHADSNIVIM-LVGNKSDLRHLRAVPTD
QERYRAI.SAYYRGAVGALLVYDIAKHLTYENVERWLKELR.DHADSNIVIM.LVGNKSDLRHLRAVPTD
RetrocopyQERYRAIMSAYYRGAVGALLVYDIAKHLTYENVERWLKELR>DHADSNIVIM>LVGNKSDLRHLRAVPTD
ParentalEARAFA-EKNGL-SFIET-SALDSTN
EARAF...KNGL.SFIET.SALDSTN
RetrocopyEARAFCRKKNGL>SFIET>SALDSTN

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Echinops telfairi was not studied using RNA-Seq expression data.
Echinops telfairi was not studied using ChIP-Seq data.
Echinops telfairi was not studied using EST data.
Echinops telfairi was not studied using FANTOM5 data.
retro_etel_694 was not experimentally validated.

Retrocopy orthology:
Echinops telfairi does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

Parental genes homology:
Parental genes homology involve 13 parental genes, and 22 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000189591 retrocopy
Callithrix jacchus ENSCJAG000000073331 retrocopy
Echinops telfairi ENSETEG00000004920 5 retrocopies
Echinops telfairi ENSETEG000000103402 retrocopies
Echinops telfairi ENSETEG000000180423 retrocopies
Homo sapiens ENSG000001037691 retrocopy
Gorilla gorilla ENSGGOG000000142522 retrocopies
Myotis lucifugus ENSMLUG000000088202 retrocopies
Macaca mulatta ENSMMUG000000080061 retrocopy
Nomascus leucogenys ENSNLEG000000128531 retrocopy
Petromyzon marinus ENSPMAG000000093351 retrocopy
Pongo abelii ENSPPYG000000065731 retrocopy
Pan troglodytes ENSPTRG000000071881 retrocopy



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